MmuALTA0016082-2/4 @ mm10
Alternative 3'ss
Gene
ENSMUSG00000028064 | Sema4a
Description
sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4A [Source:MGI Symbol;Acc:MGI:107560]
Coordinates
chr3:88451345-88451786:-
Coord C1 exon
chr3:88451688-88451786
Coord A exon
chr3:88451414-88451450
Coord C2 exon
chr3:88451345-88451413
Length
37 bp
Sequences
Splice sites
5' ss Seq
ATTGTGAGT
5' ss Score
7.35
3' ss Seq
CAGCCTCTTCCCCCCTCTAGGAA
3' ss Score
11.03
Exon sequences
Seq C1 exon
ACACAGTGTTTCAACTTCATTCGAGTCCTGGTCTCTTACAATGCTACTCACCTCTATGCCTGTGGGACCTTTGCCTTCAGCCCTGCCTGTACCTTCATT
Seq A exon
GAACTCCAAGATTCCCTCCTGTTGCCCATCTTGATAG
Seq C2 exon
ACAAGGTCATGGACGGGAAGGGCCAAAGCCCCTTTGACCCTGTTCACAAGCACACAGCTGTCTTGGTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028064-22-27,22-26,22-25,22-24-2/4
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(18.8=100)
A:
NA
C2:
PF0140314=Sema=PU(81.4=97.2)
Other Inclusion Isoforms:
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TACTCACCTCTATGCCTGTGGG
R:
CTGTGTGCTTGTGAACAGGGT
Band lengths:
112-149
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types